Practical strategies for discovering regulatory DNA sequence motifs

被引：104

作者：

MacIsaac, Kenzie D.

Fraenkel, Ernest

机构：

[1] MIT, Biol Engn Div, Cambridge, MA 02139 USA

[2] MIT, Dept Elect Engn & Comp Sci, Cambridge, MA 02139 USA

[3] MIT, Comp Sci & Artificial Intelligence Lab, Cambridge, MA 02139 USA

来源：

PLOS COMPUTATIONAL BIOLOGY | 2006年 / 2卷 / 04期

关键词：

D O I：

10.1371/journal.pcbi.0020036

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

[No abstract available]

引用

页码：201 / 210

页数：10

共 119 条

[1] Toucan:: deciphering the cis-regulatory logic of coregulated genes [J].

Aerts, S ;

Thijs, G ;

Coessens, B ;

Staes, M ;

Moreau, Y ;

Moor, BD .

NUCLEIC ACIDS RESEARCH, 2003, 31 (06) :1753-1764

[2]

Bailey T L, 1995, Proc Int Conf Intell Syst Mol Biol, V3, P21

[3] Methods and statistics for combining motif match scores [J].

Bailey, TL ;

Gribskov, M .

JOURNAL OF COMPUTATIONAL BIOLOGY, 1998, 5 (02) :211-221

[4]

Barash Y., 2001, Algorithms in Bioinformatics. First International Workshop, WABI 2001. Proceedings (Lecture Notes in Computer Science Vol.2149), P278

[5] Predicting gene expression from sequence [J].

Beer, MA ;

Tavazoie, S .

CELL, 2004, 117 (02) :185-198

[6] Additivity in protein-DNA interactions: how good an approximation is it? [J].

Benos, PV ;

Bulyk, ML ;

Stormo, GD .

NUCLEIC ACIDS RESEARCH, 2002, 30 (20) :4442-4451

[7] Computational identification of developmental enhancers:: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura -: art. no. R61 [J].

Berman, BP ;

Pfeiffer, BD ;

Laverty, TR ;

Salzberg, SL ;

Rubin, GM ;

Eisen, MB ;

Celniker, SE .

GENOME BIOLOGY, 2004, 5 (09)

[8] Bipartite pattern discovery by entropy minimization-based multiple local alignment [J].

Bi, CP ;

Rogan, PK .

NUCLEIC ACIDS RESEARCH, 2004, 32 (17) :4979-4991

[9] Ensembl 2006 [J].

Birney, E. ;

Andrews, D. ;

Caccamo, M. ;

Chen, Y. ;

Clarke, L. ;

Coates, G. ;

Cox, T. ;

Cunningham, F. ;

Curwen, V. ;

Cutts, T. ;

Down, T. ;

Durbin, R. ;

Fernandez-Suarez, X. M. ;

Flicek, P. ;

Graf, S. ;

Hammond, M. ;

Herrero, J. ;

Howe, K. ;

Iyer, V. ;

Jekosch, K. ;

Kahari, A. ;

Kasprzyk, A. ;

Keefe, D. ;

Kokocinski, F. ;

Kulesha, E. ;

London, D. ;

Longden, I. ;

Melsopp, C. ;

Meidl, P. ;

Overduin, B. ;

Parker, A. ;

Proctor, G. ;

Prlic, A. ;

Rae, M. ;

Rios, D. ;

Redmond, S. ;

Schuster, M. ;

Sealy, I. ;

Searle, S. ;

Severin, J. ;

Slater, G. ;

Smedley, D. ;

Smith, J. ;

Stabenau, A. ;

Stalker, J. ;

Trevanion, S. ;

Ureta-Vidal, A. ;

Vogel, J. ;

White, S. ;

Woodwark, C. .

NUCLEIC ACIDS RESEARCH, 2006, 34 :D556-D561

[10]

Blanchette M, 2001, Bioinformatics, V17 Suppl 1, pS30

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